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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtctccaattacaaatgtggcaaagtgacaactaaacattaagctctcatcaaccattcttggacatggcatccatcatgtatacctgtccatgcttccactacttcttcacatgtaagctaattcatcactcatacaagttttcaccgttcaaattttgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTTGCAATTCCTAGTGTCAGAAACGAT

Basic information

species Glycine max
transcript GLYMA08G14970.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G14970.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G21960.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcagtctccaattacaaatgtggcaaagtgacaactaaacattaagctctcatcaaccattcttggacatggcatccatcatgtatacctgtccatgc---ttccactacttcttcacatgtaagctaattcatcactcatacaagttttcaccgttcaaattttgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTTGCAATTCCTAGTGTCAGAAACGAT
                                                                || | || |    |   || ||  | | ||| | |   ||     |    |  |   ||    || |   | |     |  |  |        |    |||  |||| ||||||||||| ||||||||||||| ||| || || || || ||||||| ||| || || ||||||||||| ||||||
---------------------------------------------------------------gtgtatatcgatctctctatctaagcttatccttacgatttgttaaaaccatcgattagtcgattagtcagtaagagtgaagaagtgatgtgtcttttttttcttgtatcagACATCACTGCGGGAGCTGACAACTCTCGGTATCAAGAATGCAGAGACTCTGGCCATCCCTAGTGTCAGGAACGAT

upper sequence: GLYMA08G14970.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0031g01560.t01 (Vitis vinifera), 3'ss of exon 2
gtcagtctccaattacaaatgtg--------gcaaagtgacaactaaacattaagctc-tcatcaaccattcttggacatg-gcatccatcatgtatacctgtcca-tgcttccactacttcttcacatgtaagctaattcatcactcatacaagt--tttcaccgttcaaattttgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTTGCAATTCCTAGTGTCAGAAACGAT
||||||| ||| |||||| ||||        | ||||||  |   ||||||||  | | ||  ||| |        |||||  |||  || |||| || ||||  | ||| |  |  |     |||  ||| |   ||||   |    | | || |  | |||   | |||  |||||| |||||||||| || |||||||||||||  || ||||| || || || || || ||||||||||| ||||| ||||| |||
gtcagtcccca-ttacaagtgtgaagttctgggaaagtgctactcaaacattagccacatctacaaacccatgcatacatgtacatgaataatgtctatctgtatactgccttaaagatccactcatttgtta---aatttggctggaaaataaatagtatcatgttccaacatttgtgcaccagACATCTCTTCGGGAGCTGACAACCCTTGGAATGAAGAATGCGGAAAACCTTGCAATTCCAAGTGTTAGAAATGAT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|192295227|gb|FG986946.1|FG986946
EST:     TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACG                         ACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT
genomic: TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACGgtcagtctcc ... tgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT
EST: gi|120532690|gb|EH260823.1|EH260823
EST:     TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACG                         ACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT
genomic: TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACGgtcagtctcc ... tgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT
EST: gi|209700580|gb|BW670408.1|BW670408
EST:     TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACG                         ACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT
genomic: TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACGgtcagtctcc ... tgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT
EST: gi|120533478|gb|EH261611.1|EH261611
EST:     TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACG                         ACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT
genomic: TTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACGgtcagtctcc ... tgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaagctaattcatcactcatacaagttttcaccgttcaaattttgtgtaccagACATCACTCCGGGAGCTGACAAGTCTAGGAATTAAAAACGCAGAGAATCTTGCAATTCCTAGTGTCAGAAACGAT
    agctaat  putative branch site (score: 3)
                                    ttcaaatttt  TA-rich tract